Natural selection governs local, but not global, evolutionary gene coexpression networks in Caenorhabditis elegans. - I. King Jordan; Lee S. Katz; Dee R. Denver; J. Todd Streelman (BMC Syst. Biol., 2008)

Meningococcus genome informatics platform: a system for analyzing multilocus sequence typing data. - Lee S. Katz; Chris R. Bolen; Brian H. Harcourt; Susanna Schmink; Xin Wang; Andrey Kislyuk; Robert T. Taylor; Leonard W. Mayer; I. King Jordan (Nucleic Acids Res., 2009)

A computational genomics pipeline for prokaryotic sequencing projects. - Andrey Kislyuk; Lee S. Katz; Sonia Agrawal; Matthew S. Hagen; Andrew B. Conley; Pushkala Jayaraman; Viswateja Nelakuditi; Jay C. Humphrey; Scott A. Sammons; Dhwani Govil; Raydel D. Mair; Kathleen M. Tatti; et al. (Bioinform., 2010)

Neisseria Base: a comparative genomics database for Neisseria meningitidis. - Lee S. Katz; Jay C. Humphrey; Andrew B. Conley; Viswateja Nelakuditi; Andrey Kislyuk; Sonia Agrawal; Pushkala Jayaraman; Brian H. Harcourt; Melissa A. Olsen-Rasmussen; Michael Frace; Nitya V. Sharma; Leonard W. Mayer; et al. (Database J. Biol. Databases Curation, 2011)

Mashtree: a rapid comparison of whole genome sequence files. - Lee S. Katz; Taylor Griswold; Shatavia Morrison; Jason Caravas; Shaokang Zhang; Henk C. den Bakker; Xiangyu Deng; Heather Carleton (J. Open Source Softw., 2019)

Sepia, a taxonomy oriented read classifier in Rust. - Henk C. den Bakker; Lee S. Katz (J. Open Source Softw., 2021)

SneakerNet: A modular quality assurance and quality check workflow for primary genomic and metagenomic read data. - Taylor Griswold; Curtis Kapsak; Jessica C. Chen; Henk C. den Bakker; Grant Williams; Alyssa Kelley; Eshaw Vidyaprakash; Lee S. Katz (J. Open Source Softw., 2021)

primerForge: a Python program for identifying primer pairs capable of distinguishing groups of genomes from each other. - Joseph S. Wirth; Lee S. Katz; Grant M. Williams; Jessica C. Chen (J. Open Source Softw., 2024)

Fasten: a toolkit for streaming operations on fastq files. - Lee S. Katz; John Phan; Henk C. den Bakker (J. Open Source Softw., 2024)

Mashpit: sketching out genomic epidemiology. - Tongzhou Xu; Henk C. den Bakker; Xiangyu Deng; Lee S. Katz (J. Open Source Softw., 2024)